1 Response_reg#1
5-117 aa · 113 aa · 48.7% of protein
Raw token
Response_reg:5:2.17e-22:117:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SQ459_RS00625
Response regulator, unclassified
Clostridioides difficile · GCF_034188725
ClassRRTypeunclassifiedLength232 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_034188725#SQ459_RS00625Stable P2CS identifier used across views.
GenomeGCF_034188725Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regHTH_AraC
Protein length232 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage154 / 232 aa (66.4%)Merged over positioned domains only.
Domain description1 Response_reg,1 HTH_AraCSummary string stored in the genes table.
Signal peptideUnavailableNo TMPRED prediction file matched this gene.
Transmembrane helicesUnavailableConfigure [protein_features] tmpred_root_dir to enable this annotation.
Complete domain annotations
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 HTH_AraC#2
186-226 aa · 41 aa · 17.7% of protein
Raw token
HTH_AraC:186:0.0000383:226:41:42- Raw architecture: Response_reg:5:2.17e-22:117:113:111#HTH_AraC:186:0.0000383:226:41:42
- Domain description: 1 Response_reg,1 HTH_AraC
- TM description: N/A
- TMPRED source: No TMPRED file loaded
- TMPRED segments: N/A
- Complete: Yes
Context mapping
Resolved via p2cs_tcs_context.db when a locus tag match exists
Context labelpairedGCF_034188725::NZ_JAXHRI010000001.1::G00002
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span163847-166164Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSQ459_00625RefSeq proteinWP_003436119.1
Context group ID
GCF_034188725::NZ_JAXHRI010000001.1::G00002Context members
SQ459_RS00625SQ459_RS00630
Partner locus tags
SQ459_RS00625SQ459_RS00630
Partner old locus tags
SQ459_00625SQ459_00630
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003436119.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3NA51Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3NA51_CLODCDisplay identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSQ459_RS00625Primary locus identifier stored in the genes table.
Old locus tagSQ459_00625Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAXHRI010000001.1Sequence record reported by the local genomic context database.
Genomic interval163 847-164 545 nt699 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span163 847-166 164 ntGCF_034188725::NZ_JAXHRI010000001.1::G00002
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_034188725::NZ_JAXHRI010000001.1::G00002Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpairedNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JAXHRI010000001.1All displayed genes belong to this local TCS context.
Neighborhood span163 847-166 164 nt2 318 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
163 847 nt166 164 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SQ459_RS00625GCF_034188725#SQ459_RS00625
RRunclassifiedCurrent focus
163 847-164 545 nt · Reverse (-)
SQ459_RS00630GCF_034188725#SQ459_RS00630
HKClassic
164 659-166 164 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_012276945#GSQ50_RS11900Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + HTH_182 domains in the representative PFAM annotation.
PFAM architecture for RROC_1059373
Simplified PFAM architecture for RROC_1059373
PFAM domain coverage: 189 / 234 aa (80.8%)
1 aa234 aa
Response_regHTH_18
- Simplified architecture: Response_reg + HTH_18
- Raw architecture: Response_reg[5-116] | HTH_18[151-227]
- Domain count: 2
- Matched identifier: RROC_1059373
- Positioned domains: Response_reg 5-116 ; HTH_18 151-227
Cluster members and taxonomy
Representative gene: GCF_012276945#GSQ50_RS11900
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_034188725
AssemblyASM3418872v1 · Contighaploid
Genome composition4 275 188 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 103 · HK 49 · RR 53CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key